VirusSeq

VirusSeq is a software tool that detects known viruses and their integration sites in the human genome using next-generation sequencing data. It has been evaluated on whole-transcriptome sequencing data of 256 human cancer samples from The Cancer Genome Atlas, showing high sensitivity and specificity.

Topic

Genomics;Mapping

Detail

  • Operation: Read mapping

  • Software interface: Command-line user interface

  • Language: Perl

  • License: -

  • Cost: Free

  • Version name: -

  • Credit: The National Cancer Institute, U.S. National Institutes of Health, the Cancer Center Support Grant to The University of Texas MD Anderson Cancer Center, the National Center for Research Resources, Mary K. Chapman Foundation and the Michael and Susan Dell Foundation.

  • Input: FASTQ

  • Output: -

  • Contact: Xiaoping Su xsu1@mdanderson.org

  • Collection: -

  • Maturity: -

Publications

  • VirusSeq: software to identify viruses and their integration sites using next-generation sequencing of human cancer tissue.
  • Chen Y, et al. VirusSeq: software to identify viruses and their integration sites using next-generation sequencing of human cancer tissue. VirusSeq: software to identify viruses and their integration sites using next-generation sequencing of human cancer tissue. 2013; 29:266-7. doi: 10.1093/bioinformatics/bts665
  • https://doi.org/10.1093/bioinformatics/bts665
  • PMID: 23162058
  • PMC: PMC3546792

Download and documentation

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